De novo transcriptome sequencing and analysis of Euphorbia pekinensis Rupr.
De novo transcriptome sequencing and analysis of Euphorbia pekinensis Rupr.
复制标题
大戟的从头转录组测序与分析。
作者：
Xiaoying Cao;Fangzhou Zhang;Bo Yuan;Laisheng Meng;Xuqin Yang;Jihong Jiang
北京大戟（Euphorbia pekinensis Radixz，EPR）是一种常用的中草药。北京花化学分析表明，二萜类化合物是EPR的主要成分，具有毒性和生物活性，但对这些具有生物活性和毒性的二萜类化合物的生物合成途径以及E.北京人在这项研究中，我们测序根，茎，叶。pekinensis，并用Trinity.软件使用4.29亿个干净读数进行从头组装。然后，产生157，491个unigenes，其N50包含1826 bp。使用Nt、Nr、COGs、SwissProt、GO和KEGG数据库解释所有单基因。基于FPKM的表达谱分析表明，665个基因在根中表达上调，是CYP 450和转录因子的富集途径。其中二萜类化合物的特化途径极为多样，根据其分类学，大多数特化二萜类化合物仅限于几个植物属、种或特定组织。利用同源性，我们鉴定了26个TPS-a和TPS-c亚家族的二萜合酶候选者，其中包括25个I类蛋白，只有一个II类蛋白，其中5个I类蛋白在根中高表达。另外，还鉴定了来自CYP 71 D和CYP 726亚家族的23种CYP 450酶，其中3种在根中高表达，其表达模式与上述5种在根中表达的I类diTPS相似，可能参与EPR中大二萜类化合物的生物合成。本研究结果为进一步开展大肠杆菌功能基因组学研究提供了有益的基因组资源。is.able北京种。
Euphorbia pekinensis Radixz (EPR) is a commonly used Chinese herbal medicine prepared from the dried roots of.E. pekinensis Rupr. It has been revealed in chemical analysis that diterpenoids are the primary component of EPR.bestowing toxicity and bioactivity; however, little is known about these bioactive and toxic diterpenoid biosynthesis.pathways and diterpene diversity in E. Pekinensis. In this study, we sequenced root, stem, and leaf.transcriptomes of E. pekinensis, and conducted de novo assembly using 429 million clean reads with Trinity.software. Then, 157,491 unigenes were generated whose N50 contained 1826 bp. All of the unigenes were.interpreted using Nt, Nr, COGs, SwissProt, GO, and KEGG databases. The expression profiling based on FPKM.showed 665 genes up-regulated in roots were enrichment pathways for CYP450s and transcript factors. There are.extremely diverse specialised diterpene pathways therein, and most specialised diterpenes are limited to several.plant genera, species, or special tissues according to their taxonomy. Using homology, we identified 26 diterpenoid.synthase candidates which comprised 25 class I proteins, and only one class II protein, in TPS-a and.TPS-c sub-families, among which five class I proteins were highly expressed in root. Additionally, 23 CYP450.enzymes from sub-families of CYP71D and CYP726 were identified, and three were highly expressed in root, for.which expression patterns were similar to the aforementioned five class I diTPSs expressed in root and may be.involved in macroditerpenoid biosynthesis in EPR. Our results provided a beneficial genomic resource which is.able to be used for future functional genomics research on E. pekinensis.